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   &#160;<span id="projectnumber">0.4.0</span>
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&#160;

<h3><a class="anchor" id="index_c"></a>- c -</h3><ul>
<li>Chain()
: <a class="el" href="classmoltk_1_1PDBStructure_1_1Chain.html#acbbbb6eba40ef9cd1ac8123ca4bbd453">moltk::PDBStructure::Chain</a>
</li>
<li>clear_positions()
: <a class="el" href="classmoltk_1_1Aligner.html#a729b4f44dd7e0411b0acdde5c1561af5">moltk::Aligner</a>
</li>
<li>clear_scorer()
: <a class="el" href="classmoltk_1_1Aligner.html#ace84085990dcff6eac7f8baf8a5c5d9a">moltk::Aligner</a>
</li>
<li>clone()
: <a class="el" href="classmoltk_1_1MatrixScorer_1_1TargetPosition.html#a283dedf30a28c62172f99c864fdb8dad">moltk::MatrixScorer::TargetPosition</a>
, <a class="el" href="classmoltk_1_1Aligner_1_1QueryPosition.html#a64031ae54838bdf696af90538b4adec9">moltk::Aligner::QueryPosition</a>
, <a class="el" href="classmoltk_1_1Aligner_1_1TargetPosition.html#a435ce934a271909290d859e2e7375984">moltk::Aligner::TargetPosition</a>
, <a class="el" href="classmoltk_1_1MatrixScorer_1_1QueryPosition.html#a4db8009ff73af91086b6a00931d43ba6">moltk::MatrixScorer::QueryPosition</a>
</li>
<li>compute_cell_recurrence()
: <a class="el" href="classmoltk_1_1Aligner.html#a38863ca0eb76e0241abedefaa69b0048">moltk::Aligner</a>
</li>
<li>compute_cell_recurrence_freeE()
: <a class="el" href="classmoltk_1_1Aligner.html#a5c0dfb557f1fe73f8b0b6dc6eb029ab2">moltk::Aligner</a>
</li>
<li>compute_cell_recurrence_freeEF()
: <a class="el" href="classmoltk_1_1Aligner.html#a8d28c9bb018c6d4913e305c36093eeb0">moltk::Aligner</a>
</li>
<li>compute_cell_recurrence_freeF()
: <a class="el" href="classmoltk_1_1Aligner.html#ac1c097af307968d9caf76242977a288d">moltk::Aligner</a>
</li>
<li>compute_recurrence()
: <a class="el" href="classmoltk_1_1Aligner.html#a66756b5e61b63ee8f26b6abb7b1de02e">moltk::Aligner</a>
</li>
<li>compute_traceback()
: <a class="el" href="classmoltk_1_1Aligner.html#ac6170833b8d8c742719e45186aff85b8">moltk::Aligner</a>
</li>
<li>compute_traceback_pointer()
: <a class="el" href="classmoltk_1_1Aligner_1_1Cell.html#a46afa907bfe05f49dec3a49ec22cb9ef">moltk::Aligner::Cell</a>
</li>
<li>compute_v()
: <a class="el" href="classmoltk_1_1Aligner_1_1Cell.html#ad8b6f514f6420389c670370687518fb4">moltk::Aligner::Cell</a>
</li>
<li>const_iterator()
: <a class="el" href="classmoltk_1_1EString_1_1const__iterator.html#a1b4b8a315d0b2d1748f1e710ec6adc98">moltk::EString::const_iterator</a>
</li>
<li>create_foo_positions()
: <a class="el" href="classmoltk_1_1MatrixScorer.html#aef587746f1419b9b985ee68ff1455f04">moltk::MatrixScorer</a>
</li>
<li>create_query_positions()
: <a class="el" href="classmoltk_1_1MatrixScorer.html#a6732a8098d7e4811669934618d5ea1ef">moltk::MatrixScorer</a>
, <a class="el" href="classmoltk_1_1Aligner_1_1Scorer.html#a090273ed5beeae79b7058f647a863d84">moltk::Aligner::Scorer</a>
</li>
<li>create_target_positions()
: <a class="el" href="classmoltk_1_1MatrixScorer.html#adadccdab70f7531e88e619a75dcf58c7">moltk::MatrixScorer</a>
, <a class="el" href="classmoltk_1_1Aligner_1_1Scorer.html#ac699ce5b5c5eb5d06d7875ae3bc6e881">moltk::Aligner::Scorer</a>
</li>
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